data_1O3M # _model_server_result.job_id 2KkleG-XAKtm1lt2MxcChw _model_server_result.datetime_utc '2024-10-18 16:29:44' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 1o3m # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":246}' # _entry.id 1O3M # _exptl.entry_id 1O3M _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 336.269 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-{5-[AMINO(IMINIO)METHYL]-1H-BENZIMIDAZOL-2-YL}-4-(TRIFLUOROMETHOXY)BENZENOLATE _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 1O3M _cell.length_a 63.77 _cell.length_b 63.52 _cell.length_c 69.42 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1O3M _symmetry.cell_setting orthorhombic _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 7 A CYS 22 1_555 A SG CYS 137 A CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf2 A SG CYS 25 A CYS 42 1_555 A SG CYS 41 A CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? disulf ? disulf3 A SG CYS 109 A CYS 128 1_555 A SG CYS 210 A CYS 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf4 A SG CYS 116 A CYS 136 1_555 A SG CYS 183 A CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.002 ? disulf ? disulf5 A SG CYS 148 A CYS 168 1_555 A SG CYS 162 A CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? disulf ? disulf6 A SG CYS 173 A CYS 191 1_555 A SG CYS 197 A CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? covale ? covale1 A OG SER 177 A SER 195 1_555 D O6' 785 . A 785 246 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.007 ? metalc ? metalc1 A OE2 GLU 52 A GLU 70 1_555 B CA CA . A CA 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.363 ? metalc ? metalc2 A O ASN 54 A ASN 72 1_555 B CA CA . A CA 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.212 ? metalc ? metalc3 A O VAL 57 A VAL 75 1_555 B CA CA . A CA 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.156 ? metalc ? metalc4 A OE2 GLU 62 A GLU 80 1_555 B CA CA . A CA 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.488 ? metalc ? metalc5 B CA CA . A CA 247 1_555 E O HOH . A HOH 248 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.278 ? metalc ? metalc6 B CA CA . A CA 247 1_555 E O HOH . A HOH 560 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? # _chem_comp.formula 'C15 H11 F3 N4 O2' _chem_comp.formula_weight 336.269 _chem_comp.id 785 _chem_comp.mon_nstd_flag . _chem_comp.name 2-{5-[AMINO(IMINIO)METHYL]-1H-BENZIMIDAZOL-2-YL}-4-(TRIFLUOROMETHOXY)BENZENOLATE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms CRA_9785 # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C1 C2 785 doub 1 n y C1 C6 785 sing 2 n y C1 C7 785 sing 3 n n C2 C3 785 sing 4 n y C2 HC2 785 sing 5 n n C3 C4 785 doub 6 n y C3 HC3 785 sing 7 n n C4 C5 785 sing 8 n y C4 N3 785 sing 9 n y C5 C6 785 doub 10 n y C5 N4 785 sing 11 n y C6 HC6 785 sing 12 n n C7 N1 785 sing 13 n n C7 N2 785 doub 14 n n N1 HH11 785 sing 15 n n N1 HH12 785 sing 16 n n N2 HH21 785 sing 17 n n N2 HH22 785 sing 18 n n N3 C8 785 sing 19 n y N3 HN3 785 sing 20 n n N4 C8 785 doub 21 n y C8 C1' 785 sing 22 n y C1' C2' 785 doub 23 n y C1' C6' 785 sing 24 n y C2' C3' 785 sing 25 n y C2' HC2' 785 sing 26 n n C3' O3' 785 sing 27 n n C3' C4' 785 doub 28 n y O3' C3X 785 sing 29 n n C3X FV' 785 sing 30 n n C3X FW' 785 sing 31 n n C3X FX' 785 sing 32 n n C4' C5' 785 sing 33 n y C4' HC4' 785 sing 34 n n C5' C6' 785 doub 35 n y C5' HC5' 785 sing 36 n n C6' O6' 785 sing 37 n n # _atom_sites.entry_id 1O3M _atom_sites.fract_transf_matrix[1][1] 0.015681 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015743 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.014405 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 CA A 1 247 247 CA CA . C 3 CL A 1 260 260 CL CL . D 4 785 A 1 246 246 785 BZM . E 5 HOH A 1 248 248 HOH HOH . E 5 HOH A 2 249 249 HOH HOH . E 5 HOH A 3 250 250 HOH HOH . E 5 HOH A 4 252 252 HOH HOH . E 5 HOH A 5 253 253 HOH HOH . E 5 HOH A 6 254 254 HOH HOH . E 5 HOH A 7 255 255 HOH HOH . E 5 HOH A 8 256 256 HOH HOH . E 5 HOH A 9 258 258 HOH HOH . E 5 HOH A 10 259 259 HOH HOH . E 5 HOH A 11 261 261 HOH HOH . E 5 HOH A 12 262 262 HOH HOH . E 5 HOH A 13 263 263 HOH HOH . E 5 HOH A 14 264 264 HOH HOH . E 5 HOH A 15 266 266 HOH HOH . E 5 HOH A 16 267 267 HOH HOH . E 5 HOH A 17 268 268 HOH HOH . E 5 HOH A 18 270 270 HOH HOH . E 5 HOH A 19 272 272 HOH HOH . E 5 HOH A 20 273 273 HOH HOH . E 5 HOH A 21 274 274 HOH HOH . E 5 HOH A 22 275 275 HOH HOH . E 5 HOH A 23 277 277 HOH HOH . E 5 HOH A 24 278 278 HOH HOH . E 5 HOH A 25 280 280 HOH HOH . E 5 HOH A 26 281 281 HOH HOH . E 5 HOH A 27 282 282 HOH HOH . E 5 HOH A 28 283 283 HOH HOH . E 5 HOH A 29 284 284 HOH HOH . E 5 HOH A 30 285 285 HOH HOH . E 5 HOH A 31 286 286 HOH HOH . E 5 HOH A 32 287 287 HOH HOH . E 5 HOH A 33 288 288 HOH HOH . E 5 HOH A 34 289 289 HOH HOH . E 5 HOH A 35 290 290 HOH HOH . E 5 HOH A 36 291 291 HOH HOH . E 5 HOH A 37 292 292 HOH HOH . E 5 HOH A 38 293 293 HOH HOH . E 5 HOH A 39 294 294 HOH HOH . E 5 HOH A 40 295 295 HOH HOH . E 5 HOH A 41 296 296 HOH HOH . E 5 HOH A 42 297 297 HOH HOH . E 5 HOH A 43 299 299 HOH HOH . E 5 HOH A 44 300 300 HOH HOH . E 5 HOH A 45 302 302 HOH HOH . E 5 HOH A 46 308 308 HOH HOH . E 5 HOH A 47 309 309 HOH HOH . E 5 HOH A 48 312 312 HOH HOH . E 5 HOH A 49 315 315 HOH HOH . E 5 HOH A 50 317 317 HOH HOH . E 5 HOH A 51 318 318 HOH HOH . E 5 HOH A 52 321 321 HOH HOH . E 5 HOH A 53 322 322 HOH HOH . E 5 HOH A 54 323 323 HOH HOH . E 5 HOH A 55 326 326 HOH HOH . E 5 HOH A 56 327 327 HOH HOH . E 5 HOH A 57 328 328 HOH HOH . E 5 HOH A 58 333 333 HOH HOH . E 5 HOH A 59 335 335 HOH HOH . E 5 HOH A 60 336 336 HOH HOH . E 5 HOH A 61 338 338 HOH HOH . E 5 HOH A 62 339 339 HOH HOH . E 5 HOH A 63 342 342 HOH HOH . E 5 HOH A 64 346 346 HOH HOH . E 5 HOH A 65 348 348 HOH HOH . E 5 HOH A 66 349 349 HOH HOH . E 5 HOH A 67 351 351 HOH HOH . E 5 HOH A 68 352 352 HOH HOH . E 5 HOH A 69 353 353 HOH HOH . E 5 HOH A 70 354 354 HOH HOH . E 5 HOH A 71 358 358 HOH HOH . E 5 HOH A 72 360 360 HOH HOH . E 5 HOH A 73 361 361 HOH HOH . E 5 HOH A 74 363 363 HOH HOH . E 5 HOH A 75 364 364 HOH HOH . E 5 HOH A 76 369 369 HOH HOH . E 5 HOH A 77 371 371 HOH HOH . E 5 HOH A 78 374 374 HOH HOH . E 5 HOH A 79 375 375 HOH HOH . E 5 HOH A 80 376 376 HOH HOH . E 5 HOH A 81 377 377 HOH HOH . E 5 HOH A 82 378 378 HOH HOH . E 5 HOH A 83 380 380 HOH HOH . E 5 HOH A 84 381 381 HOH HOH . E 5 HOH A 85 382 382 HOH HOH . E 5 HOH A 86 383 383 HOH HOH . E 5 HOH A 87 384 384 HOH HOH . E 5 HOH A 88 385 385 HOH HOH . E 5 HOH A 89 389 389 HOH HOH . E 5 HOH A 90 390 390 HOH HOH . E 5 HOH A 91 391 391 HOH HOH . E 5 HOH A 92 392 392 HOH HOH . E 5 HOH A 93 393 393 HOH HOH . E 5 HOH A 94 395 395 HOH HOH . E 5 HOH A 95 397 397 HOH HOH . E 5 HOH A 96 402 402 HOH HOH . E 5 HOH A 97 403 403 HOH HOH . E 5 HOH A 98 404 404 HOH HOH . E 5 HOH A 99 410 410 HOH HOH . E 5 HOH A 100 412 412 HOH HOH . E 5 HOH A 101 421 421 HOH HOH . E 5 HOH A 102 430 430 HOH HOH . E 5 HOH A 103 431 431 HOH HOH . E 5 HOH A 104 432 432 HOH HOH . E 5 HOH A 105 434 434 HOH HOH . E 5 HOH A 106 448 448 HOH HOH . E 5 HOH A 107 452 452 HOH HOH . E 5 HOH A 108 480 480 HOH HOH . E 5 HOH A 109 489 489 HOH HOH . E 5 HOH A 110 502 502 HOH HOH . E 5 HOH A 111 504 504 HOH HOH . E 5 HOH A 112 505 505 HOH HOH . E 5 HOH A 113 508 508 HOH HOH . E 5 HOH A 114 537 537 HOH HOH . E 5 HOH A 115 539 539 HOH HOH . E 5 HOH A 116 547 547 HOH HOH . E 5 HOH A 117 552 552 HOH HOH . E 5 HOH A 118 557 557 HOH HOH . E 5 HOH A 119 560 560 HOH HOH . E 5 HOH A 120 567 567 HOH HOH . E 5 HOH A 121 650 650 HOH HOH . E 5 HOH A 122 664 664 HOH HOH . E 5 HOH A 123 678 678 HOH HOH . E 5 HOH A 124 683 683 HOH HOH . E 5 HOH A 125 701 701 HOH HOH . E 5 HOH A 126 703 703 HOH HOH . E 5 HOH A 127 709 709 HOH HOH . E 5 HOH A 128 714 714 HOH HOH . E 5 HOH A 129 727 727 HOH HOH . E 5 HOH A 130 750 750 HOH HOH . E 5 HOH A 131 756 756 HOH HOH . E 5 HOH A 132 781 781 HOH HOH . E 5 HOH A 133 857 857 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C1 785 . . . D 4 44.119 -3.154 26.223 1 27.07 ? C1 785 246 A 1 HETATM 2 C C2 785 . . . D 4 44.598 -1.819 26.273 1 29.01 ? C2 785 246 A 1 HETATM 3 C C3 785 . . . D 4 44.524 -1.075 27.421 1 28.56 ? C3 785 246 A 1 HETATM 4 C C4 785 . . . D 4 43.978 -1.669 28.508 1 31.54 ? C4 785 246 A 1 HETATM 5 C C5 785 . . . D 4 43.505 -2.933 28.521 1 33.69 ? C5 785 246 A 1 HETATM 6 C C6 785 . . . D 4 43.556 -3.73 27.372 1 30.11 ? C6 785 246 A 1 HETATM 7 C C7 785 . . . D 4 44.233 -3.866 25.039 1 25.44 ? C7 785 246 A 1 HETATM 8 N N1 785 . . . D 4 43.957 -5.153 25.026 1 24.03 ? N1 785 246 A 1 HETATM 9 N N2 785 . . . D 4 44.628 -3.211 23.966 1 23.78 ? N2 785 246 A 1 HETATM 10 N N3 785 . . . D 4 43.806 -1.219 29.691 1 36.26 ? N3 785 246 A 1 HETATM 11 N N4 785 . . . D 4 43.035 -3.28 29.704 1 37.75 ? N4 785 246 A 1 HETATM 12 C C8 785 . . . D 4 43.254 -2.159 30.387 1 37.81 ? C8 785 246 A 1 HETATM 13 C C1' 785 . . . D 4 42.962 -1.964 31.737 0.66 40.89 ? C1' 785 246 A 1 HETATM 14 C C2' 785 . . . D 4 42.464 -3.049 32.477 0.66 41.17 ? C2' 785 246 A 1 HETATM 15 C C3' 785 . . . D 4 42.15 -2.895 33.825 0.66 41.71 ? C3' 785 246 A 1 HETATM 16 O O3' 785 . . . D 4 41.664 -3.837 34.439 0.66 43.08 ? O3' 785 246 A 1 HETATM 17 C C3X 785 . . . D 4 42.458 -4.692 35.247 0.27 43.71 ? C3X 785 246 A 1 HETATM 18 F FV' 785 . . . D 4 41.556 -5.617 35.825 0.27 43.8 ? FV' 785 246 A 1 HETATM 19 F FW' 785 . . . D 4 43.398 -5.342 34.402 0.27 43.8 ? FW' 785 246 A 1 HETATM 20 F FX' 785 . . . D 4 43.042 -3.952 36.293 0.27 45.93 ? FX' 785 246 A 1 HETATM 21 C C4' 785 . . . D 4 42.347 -1.652 34.437 0.66 41.92 ? C4' 785 246 A 1 HETATM 22 C C5' 785 . . . D 4 42.843 -0.557 33.714 0.66 41.95 ? C5' 785 246 A 1 HETATM 23 C C6' 785 . . . D 4 43.155 -0.688 32.359 0.66 41.34 ? C6' 785 246 A 1 HETATM 24 O O6' 785 . . . D 4 43.615 0.448 31.678 0.66 41.8 ? O6' 785 246 A 1 HETATM 25 H HC2 785 . . . D 4 45.036 -1.346 25.413 1 28.32 ? HC2 785 246 A 1 HETATM 26 H HC3 785 . . . D 4 44.881 -0.06 27.466 1 29.5 ? HC3 785 246 A 1 HETATM 27 H HC6 785 . . . D 4 43.169 -4.739 27.38 1 29.52 ? HC6 785 246 A 1 HETATM 28 H HH11 785 . . . D 4 43.679 -5.586 25.896 1 24.82 ? HH11 785 246 A 1 HETATM 29 H HH12 785 . . . D 4 43.994 -5.761 24.24 1 23.71 ? HH12 785 246 A 1 HETATM 30 H HH21 785 . . . D 4 44.842 -2.222 24.021 1 23.48 ? HH21 785 246 A 1 HETATM 31 H HH22 785 . . . D 4 44.767 -3.652 23.09 1 24.55 ? HH22 785 246 A 1 HETATM 32 H HN3 785 . . . D 4 44.029 -0.335 30.058 1 35.73 ? HN3 785 246 A 1 HETATM 33 H HC2' 785 . . . D 4 42.32 -4.011 32.003 0.66 40.45 ? HC2' 785 246 A 1 HETATM 34 H HC4' 785 . . . D 4 42.107 -1.529 35.482 0.66 41.75 ? HC4' 785 246 A 1 HETATM 35 H HC5' 785 . . . D 4 42.988 0.395 34.209 0.66 41.57 ? HC5' 785 246 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 321 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 35 #